Intermediate filament associated proteins:
Gespeichert in:
| Weitere Verfasser: | , |
|---|---|
| Format: | Elektronisch E-Book |
| Sprache: | English |
| Veröffentlicht: |
Cambridge, MA
Academic Press
2016
|
| Ausgabe: | First edition |
| Schriftenreihe: | Methods in enzymology
volume 569 |
| Schlagworte: | |
| Online-Zugang: | TUM01 UBM01 UBR01 UBT01 UER01 Volltext Inhaltsverzeichnis |
| Beschreibung: | 1 Online-Ressource |
| ISBN: | 9780128034699 9780128034903 |
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Datensatz im Suchindex
| _version_ | 1804175815289602048 |
|---|---|
| adam_text | Titel: Intermediate filament associated proteins
Autor: Wilson, Katherine L
Jahr: 2016
CONTENTS
Contributors xiii
Preface xix
Part I
Identification and Biochemical Analysis
of Lamin-Associated Proteins
1. BiolD Identification of Lamin-Associated Proteins 3
Aaron A. Mehus, Ruthellen H. Anderson, and Kyle J. Roux
1. Introduction 4
2. BiolD Method 9
3. Anticipated Results 17
4. Conclusions 18
Acknowledgment 20
References 20
2. Proximity-Dependent Biotin Identification (BiolD)
in Dictyostelium Amoebae 23
Petros Batsios, Irene Meyer, and Ralph Graf
1. Introduction 24
2. Materials 31
3. Methods 35
4. Conclusions 40
References 40
3. Purification and Structural Analysis of LEM-Domain Proteins 43
Isaline Herrada, Benjamin Bourgeois, Camille Samson, Brigitte Buendia,
Howard J. Worman, and Sophie Zinn-Justin
1. Introduction 44
2. Divide and Conquer Approach to Study LEM-Domain Proteins 45
3. Analysis of Predicted Unstructured Regions in LEM-Domain Proteins 51
4. LEM-Domain Proteins with Their Partners 55
5. Concluding Remarks 57
Acknowledgments 58
References 58
vi Contents
4. Purification and Structural Analysis of SUN and KASH
Domain Proteins 63
F. Esra Demircioglu, Victor E. Cruz, and Thomas U. Schwartz
1. Introduction 64
2. Purification of SUN Proteins and SUN-KASH Complexes 66
3. Structural Analysis of Human SUN2 and SUN2-KASH1/2 Complexes 72
4. Conclusions and Pitfalls 76
Acknowledgments 76
References 76
5. Purification of Lamins and Soluble Fragments of NETs 79
Alexandr A. Makarov, Andrea Rizzotto, Peter Meinke, and Eric C. Schirmer
1. Introduction
2. Purification Parameters
3. Lamin A Purification
4. NET Fragment Purification
5. Gel Extraction of Proteins
6. Conclusions and Potential Applications
Acknowledgments
References
6. Simple Separation of Functionally Distinct Populations of Lamin
Binding Proteins
Jason M. Berk and Katherine L. Wilson
1. Introduction
2. Cell Culture (with or without Transfection) and Harvesting
3. Separate Nuclei from Cytoplasm
4. Fractionate Nuclei to Separate Easy- Versus
Sonication-Dependent Proteins
5. Analysis by Immunoprecipitation and Immunoblotting
6. Conclusions
Acknowledgments
References
Part II
General Methods for Analysis of Intermediate
Filament-Associated Proteins
7. Development of a Novel Green Fluorescent Protein-Based
Binding Assay to Study the Association of Plakins with
Intermediate Filament Proteins 117
Bertrand Favre, Nadja Begr6, Jamal-Eddine Bouameur, and Luca Borradori
80
83
85
92
95
98
98
98
101
102
104
105
108
109
111
112
112
Contents
vii
1. Introduction 118
2. Recombinant Proteins 123
3. Fluorescence Measurement of Soluble EGFP 127
4. Expression of EGFP-Fusion Proteins in Mammalian Cells 128
5. Analysis of the Interaction of EGFP-Fusion Recombinant Plakins
with IF Proteins 129
6. Concluding Remarks 133
Acknowledgments 133
References 134
8. Functional Analysis of Keratin-Associated Proteins in
Intestinal Epithelia: Heat-Shock Protein Chaperoning
and Kinase Rescue 139
Anastasia Mashukova, Radia Forteza, and Pedro J. Salas
1. Introduction 140
2. Isolation of Keratin Intermediate Filaments for Functional Assays 142
3. Detection of Chaperoning Activity on Keratin Intermediate Filaments,
Relative to Cytosolic Activity 146
4. Refolding of aPKC by Hsp70/40 in Keratin Intermediate Filaments 147
5. Supplementation Assays Using Cytosol (S) and Isolated Keratin
Intermediate Filaments (kP) 149
6. Summary 151
Acknowledgments 152
References 152
9. Purification of Protein Chaperones and Their Functional
Assays with Intermediate Filaments 155
Ming-Der Perng, Yu-Shan Huang, and Roy A. Quinlan
1. Introduction 156
2. Purification of sHSPs 159
3. Purification of IF Proteins 162
4. Analysis of sHSP and IF Proteins Interaction 164
Acknowledgments 170
References 170
10. Purification and Structural Analysis of Plectin and BPAGIe 177
Jos6 A. Manso, ln£s Garcia Rubio, Maria Gomez-Hernandez, Esther Ortega,
Rub£n M. Buey, Ana M. Carballido, Arturo Carabias, Noelia Alonso-Garcia,
and Jos6 M. de Pereda
1. Introduction 178
viii
Contents
2. Purification of Fragments of Plectin and BPAG1 e for Structural Analysis 179
3. Structural Analysis of Plectin and BPAGIe 183
4. Analysis of Multi-Domain Structures Combining MX, DEER, and SAXS 192
5. Conclusion 194
Acknowledgments 194
References 194
11. Purification and Structural Analysis of Desmoplakin 197
Hee-Jung Choi and William I. Weis
1. Introduction 198
2. Purification and Structural Analysis of DPNT 200
3. Purification and Structural Analysis of DPCT 205
4. Future Directions 210
Acknowledgments 211
References 211
12. Degradation of the Intermediate Filament Family
by Gigaxonin 215
Pascale Bomont
1. Introduction 215
2. Gigaxonin Expression and Localization 216
3. Analyzing Gigaxonin Role in IF Organization 221
4. Future Perspectives 228
Acknowledgments 229
References 229
Part III
Functional and Genetic Analysis of the Plakin
and Other Cytoskeletal Cross-Linkers
13. Functional and Genetic Analysis of Plectin in Skin
and Muscle 235
Gunther A. Rezniczek, Lilli Winter, Gemot Walko, and Gerhard Wiche
1. Introduction 236
2. Main Challenges 240
3. Tools 241
4. Methods, Pearls, and Pitfalls 243
5. Conclusions 256
Acknowledgments 257
References 257
Contents
ix
14. Functional and Genetic Analysis of Epiplakin in Epithelial Cells 261
Sandra Szabo, Karl L. Wogenstein, and Peter Fuchs
1. Introduction 262
2. Main Considerations 265
3. Methods: Pearls and Pitfalls 266
4. Conclusions 282
Acknowledgments 283
References 283
15. In Vitro Model of the Epidermis: Connecting Protein
Function to 3D Structure 287
Christopher Arnette, Jennifer L. Koetsier, Paul Hoover, Spiro Getsios,
and Kathleen J. Green
1. Introduction 288
2. Historical Perspective 290
3. Cellular Constituents of 3D Raft Cultures 291
4. 3D Raft Cultures 295
5. Experimental Manipulation of the Organotypic Raft Cultures 301
6. Analysis of Organotypic Raft Cultures and Other Methods 305
7. Conclusions 305
Acknowledgments 305
References 306
16. Functional Analysis of Periplakin and Envoplakin, Cytoskeletal
Linkers, and Cornified Envelope Precursor Proteins 309
Veronika Boczonadi and Arto Maatta
1. Introduction 310
2. Implications of Plakin Domain Structure to Functional Analysis 312
3. Analysis of the Plakin Expression and Localization in Cell Culture Models 313
4. Ablation of Periplakin Expression by RNA Interference 318
5. Identification of Periplakin Interaction Partners 319
6. Envoplakin and Periplakin Gene-Targeted Mice 322
7. Conclusions and Open Questions 325
Acknowledgments 326
References 326
17.Microtubule-Actin Cross-Linking Factor 1: Domains, Interaction
Partners, and Tissue-Specific Functions 331
Dmitry Goryunov and Ronald K. H. Liem
1. Introduction 332
X
Contents
2. MACF1 Domains 336
3. Methods to Study Plakin Domain Interactions 338
4. Tissue-Specific Functions of MACF1 in Mammals 343
5. Conclusions 349
References 349
18. Functional and Genetic Analysis of Neuronal Isoforms of BPAG1 355
Anisha Lynch-Godrei and Rashmi Kothary
1. Introduction 356
2. Mouse Models 358
3. Cell Culture System 362
4. BPAG1 Isoform Knockdown in Immortalized Cell Lines 366
5. BPAG1 Expression Analysis 367
6. BPAG1 Fusion Protein Constructs 369
7. Concluding Remarks 369
Acknowledgments 370
References 370
19. Functional and Genetic Analysis of Spectraplakins in Drosophila 373
Ines Hahn, Matthew Ronshaugen, Natalia Sanchez-Soriano, and Andreas
Prokop
1. Introduction 374
2. Strategies to Manipulate Shot Function 378
3. Functional Analyses of shot In Vivo 387
4. Functional Analyses of Shot in Cell Culture 390
5. Informatics Approaches to Shot Protein Function 394
6. Conclusion 395
Acknowledgments 395
References 396
20. Functional and Genetic Analysis of VAB-10 Spectraplakin
in Caenorhabditis elegans 407
Christelle Gaily, Huimin Zhang, and Michel Labouesse
1. Introduction 408
2. Tools 409
3. High-Throughput RNAi Screen in L4 Worms 418
4. 2D Gel on Intermediate Filaments 422
5. Conclusion 427
Acknowledgments 427
References 427
Contents
xi
Part IV
Functional and Genetic Analysis of Lamin-Associated
Proteins
21. Tagged Chromosomal Insertion Site System: A Method
to Study Lamina-Associated Chromatin 433
Jennifer C. Harr and Karen L. Reddy
1. Introduction 434
2. Design and Preparation of the TCIS System Construct 435
3. Generation of Stable Mammalian TCIS Clonal Lines via Random
Integration 440
4. Insert Your DNA of Interest into a Genomic TCIS Site 442
5. Design and Use a Customized (or Standard) EGFP-Lacl Construct
for TCIS Visualization 445
6. Detect and Localize TCIS Sites by Immunofluorescence 446
7. Applications 448
8. Concluding Remarks 451
Acknowledgments 451
References 452
22. Lamin-Binding Proteins in Caenorhabditis elegans 455
Agnieszka Dobrzynska, Peter Askjaer, and Yosef Gruenbaum
1. Introduction 456
2. Mos1-Mediated Single-Copy Insertion 463
3. CRISPR/Cas9-Mediated Genome Engineering 468
4. DamID Analysis of LBP Interactions with Chromatin 471
5. Chromatin Immunoprecipitation of LBPs 476
6. Physiological Assays for LBP Function 477
7. FRAP and FLIP Analysis 479
8. Summary 480
Acknowledgments 480
References 480
23. Pathologically Relevant Prelamin A Interactions
with Transcription Factors 485
Arantza Infante and Clara I. Rodriguez
1. Introduction 486
2. Prelamin A Accumulation in hMSCS 489
3. Identification of Transcription Factors dysregulated due
to Prelamin A Accumulation 494
xii Contents
4. Conclusions 499
Acknowledgments 499
References 499
24. MCLIP Detection of Novel Protein-Protein Interactions
at the Nuclear Envelope 503
Mohammed Hakim Jafferali, Ricardo A. Figueroa, and Einar Hallberg
1. Introduction 503
2. MCLIP Method 509
3. Method for Isolating Nuclei from Tissue Culture Cells 511
4. Conclusions 512
Acknowledgments 512
References 512
25. Preparation of the Human Cytomegalovirus Nuclear
Egress Complex and Associated Proteins 517
Mayuri Sharma, Jeremy P. Kamil, and Donald M. Coen
1. Introduction 518
2. Sample Preparation for Isolation of the NEC 519
3. Concluding Remarks 524
Acknowledgments 525
References 525
Author Index
Subject Index
527
563
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| spelling | Intermediate filament associated proteins edited by Katherine L. Wilson and Arnoud Sonnenberg First edition Cambridge, MA Academic Press 2016 1 Online-Ressource txt rdacontent c rdamedia cr rdacarrier Methods in enzymology volume 569 Intermediärfilament (DE-588)4162026-4 gnd rswk-swf Proteine (DE-588)4076388-2 gnd rswk-swf (DE-588)4143413-4 Aufsatzsammlung gnd-content Intermediärfilament (DE-588)4162026-4 s Proteine (DE-588)4076388-2 s b DE-604 Wilson, Katherine L. edt Sonnenberg, Arnoud edt Methods in enzymology volume 569 (DE-604)BV021328877 569 http://www.sciencedirect.com/science/bookseries/00766879/569 Verlag URL des Erstveröffentlichers Volltext HBZ Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=028707958&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Intermediate filament associated proteins Methods in enzymology Intermediärfilament (DE-588)4162026-4 gnd Proteine (DE-588)4076388-2 gnd |
| subject_GND | (DE-588)4162026-4 (DE-588)4076388-2 (DE-588)4143413-4 |
| title | Intermediate filament associated proteins |
| title_auth | Intermediate filament associated proteins |
| title_exact_search | Intermediate filament associated proteins |
| title_full | Intermediate filament associated proteins edited by Katherine L. Wilson and Arnoud Sonnenberg |
| title_fullStr | Intermediate filament associated proteins edited by Katherine L. Wilson and Arnoud Sonnenberg |
| title_full_unstemmed | Intermediate filament associated proteins edited by Katherine L. Wilson and Arnoud Sonnenberg |
| title_short | Intermediate filament associated proteins |
| title_sort | intermediate filament associated proteins |
| topic | Intermediärfilament (DE-588)4162026-4 gnd Proteine (DE-588)4076388-2 gnd |
| topic_facet | Intermediärfilament Proteine Aufsatzsammlung |
| url | http://www.sciencedirect.com/science/bookseries/00766879/569 http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=028707958&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| volume_link | (DE-604)BV021328877 |
| work_keys_str_mv | AT wilsonkatherinel intermediatefilamentassociatedproteins AT sonnenbergarnoud intermediatefilamentassociatedproteins |